AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene034453

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034453.t1 MTR_2g086510 95.484 155 7 0 1 155 1 155 7.25e-109 306
MS.gene034453.t1 MTR_4g053120 73.548 155 41 0 1 155 1 155 1.05e-82 240
MS.gene034453.t1 MTR_1g112030 71.970 132 36 1 24 155 30 160 2.03e-66 199
MS.gene034453.t1 MTR_1g112030 71.970 132 36 1 24 155 26 156 2.06e-66 199
MS.gene034453.t1 MTR_1g112050 70.229 131 38 1 24 154 24 153 4.89e-63 191
MS.gene034453.t1 MTR_8g088720 61.789 123 45 2 33 154 25 146 1.74e-48 153
MS.gene034453.t1 MTR_2g006290 59.504 121 45 2 37 154 29 148 2.93e-47 150
MS.gene034453.t1 MTR_5g006320 40.404 99 57 2 56 154 47 143 1.44e-21 85.1
MS.gene034453.t1 MTR_4g098490 28.276 145 95 2 11 155 24 159 1.45e-16 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene034453.t1 AT2G27510 66.197 142 45 2 15 155 16 155 7.37e-64 192
MS.gene034453.t1 AT1G60950 64.567 127 40 3 32 154 22 147 2.71e-50 158
MS.gene034453.t1 AT1G10960 64.286 126 40 3 30 151 20 144 2.15e-47 150
MS.gene034453.t1 AT5G10000 53.226 124 56 1 33 154 24 147 1.02e-43 141
MS.gene034453.t1 AT4G14890 45.263 95 50 2 60 154 52 144 1.90e-22 87.8
MS.gene034453.t1 AT1G32550 39.535 86 52 0 70 155 69 154 6.17e-18 76.6
MS.gene034453.t1 AT1G32550 37.255 102 45 3 70 155 69 167 3.30e-13 64.3

Find 37 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCGATGACAATCAATTAA+AGG 0.218310 2.3:-12496611 MS.gene034453:CDS
CGGCGGTAGTGAATTGATTT+TGG 0.246812 2.3:+12496920 None:intergenic
TGTGCTGGGAAGGTTGTTTC+CGG 0.284057 2.3:-12496661 MS.gene034453:CDS
AAGAATGTTTCACGATCTTT+TGG 0.297059 2.3:-12496862 MS.gene034453:CDS
GCTCCAGCACGGCATGAATA+TGG 0.303973 2.3:+12496694 None:intergenic
GGAGCATGCTCTACCTGTGC+TGG 0.371691 2.3:-12496676 MS.gene034453:CDS
TAGATGGAGCAGATGACTTC+AGG 0.405139 2.3:+12496839 None:intergenic
CAAAATTAAGCTGATTGGTC+CGG 0.411846 2.3:-12496794 MS.gene034453:CDS
TGAAGTCATCTGCTCCATCT+AGG 0.419302 2.3:-12496837 MS.gene034453:CDS
GCTTACAAAATTAAGCTGAT+TGG 0.422819 2.3:-12496799 MS.gene034453:CDS
GCCACCGCAGTAACCCTAGA+TGG 0.454849 2.3:+12496823 None:intergenic
CTTCCATATTCATGCCGTGC+TGG 0.458995 2.3:-12496697 MS.gene034453:CDS
ATCTGACTGATCGACAGAAC+CGG 0.475455 2.3:+12496642 None:intergenic
TGAATAACACAGTCTGAAGT+TGG 0.477269 2.3:+12496559 None:intergenic
TTCGCAGATCCTAGAGAGGA+TGG 0.516120 2.3:+12496883 None:intergenic
TGGAAAAGAAAATGAATTTG+AGG 0.517477 2.3:-12496770 MS.gene034453:CDS
ATGCTCTACCTGTGCTGGGA+AGG 0.518844 2.3:-12496671 MS.gene034453:CDS
GAGCATGCTCTACCTGTGCT+GGG 0.533531 2.3:-12496675 MS.gene034453:CDS
CTGGCAGAAAATTTCAATAG+AGG 0.534370 2.3:+12496518 None:intergenic
GTCAGCCTTGTCAACTGTGA+AGG 0.544738 2.3:-12496974 MS.gene034453:CDS
GAAGTCATCTGCTCCATCTA+GGG 0.545771 2.3:-12496836 MS.gene034453:CDS
GTTATTCATACGCACAAAGA+AGG 0.560127 2.3:-12496544 MS.gene034453:CDS
ATTAAGCTGATTGGTCCGGA+TGG 0.560404 2.3:-12496790 MS.gene034453:CDS
GTCAAGTGCCCATCCTCTCT+AGG 0.563594 2.3:-12496892 MS.gene034453:CDS
TTAGATGCAGCAGAGAATGC+AGG 0.566247 2.3:-12496727 MS.gene034453:CDS
TCCATCTAGGGTTACTGCGG+TGG 0.580356 2.3:-12496824 MS.gene034453:CDS
GGTTCTGTCGATCAGTCAGA+TGG 0.582615 2.3:-12496640 MS.gene034453:CDS
GGAAACAACCTTCCCAGCAC+AGG 0.586489 2.3:+12496663 None:intergenic
AACACAGTCTGAAGTTGGAT+AGG 0.596926 2.3:+12496564 None:intergenic
GATGACAATCAATTAAAGGA+AGG 0.602977 2.3:-12496607 MS.gene034453:CDS
GGATGGGCACTTGACAGTTG+CGG 0.612452 2.3:+12496900 None:intergenic
AGGTAGAGCATGCTCCAGCA+CGG 0.616285 2.3:+12496683 None:intergenic
TCGCAGATCCTAGAGAGGAT+GGG 0.630679 2.3:+12496884 None:intergenic
TGCTCCATCTAGGGTTACTG+CGG 0.639606 2.3:-12496827 MS.gene034453:CDS
TGGGCACTTGACAGTTGCGG+CGG 0.640252 2.3:+12496903 None:intergenic
GTAAACCTTCACAGTTGACA+AGG 0.652422 2.3:+12496969 None:intergenic
ATTCTTCGCAGATCCTAGAG+AGG 0.674873 2.3:+12496879 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TGGAAAAGAAAATGAATTTG+AGG - chr2.3:12496737-12496756 MS.gene034453:CDS 25.0%
!! AATTCATTTTCTTTTCCATC+CGG + chr2.3:12496735-12496754 None:intergenic 25.0%
GATGACAATCAATTAAAGGA+AGG - chr2.3:12496900-12496919 MS.gene034453:CDS 30.0%
GCTTACAAAATTAAGCTGAT+TGG - chr2.3:12496708-12496727 MS.gene034453:CDS 30.0%
TCTCGATGACAATCAATTAA+AGG - chr2.3:12496896-12496915 MS.gene034453:CDS 30.0%
! AAGAATGTTTCACGATCTTT+TGG - chr2.3:12496645-12496664 MS.gene034453:CDS 30.0%
GTTATTCATACGCACAAAGA+AGG - chr2.3:12496963-12496982 MS.gene034453:CDS 35.0%
! CAAAATTAAGCTGATTGGTC+CGG - chr2.3:12496713-12496732 MS.gene034453:CDS 35.0%
! TGAATAACACAGTCTGAAGT+TGG + chr2.3:12496951-12496970 None:intergenic 35.0%
GTAAACCTTCACAGTTGACA+AGG + chr2.3:12496541-12496560 None:intergenic 40.0%
! AACACAGTCTGAAGTTGGAT+AGG + chr2.3:12496946-12496965 None:intergenic 40.0%
!!! CAGTTTTAAGCGTGCAATAG+CGG + chr2.3:12496563-12496582 None:intergenic 40.0%
ATCTGACTGATCGACAGAAC+CGG + chr2.3:12496868-12496887 None:intergenic 45.0%
ATTCTTCGCAGATCCTAGAG+AGG + chr2.3:12496631-12496650 None:intergenic 45.0%
GAAGTCATCTGCTCCATCTA+GGG - chr2.3:12496671-12496690 MS.gene034453:CDS 45.0%
TAGATGGAGCAGATGACTTC+AGG + chr2.3:12496671-12496690 None:intergenic 45.0%
TGAAGTCATCTGCTCCATCT+AGG - chr2.3:12496670-12496689 MS.gene034453:CDS 45.0%
TTAGATGCAGCAGAGAATGC+AGG - chr2.3:12496780-12496799 MS.gene034453:CDS 45.0%
! ATTAAGCTGATTGGTCCGGA+TGG - chr2.3:12496717-12496736 MS.gene034453:CDS 45.0%
!! CGGCGGTAGTGAATTGATTT+TGG + chr2.3:12496590-12496609 None:intergenic 45.0%
CTTCCATATTCATGCCGTGC+TGG - chr2.3:12496810-12496829 MS.gene034453:CDS 50.0%
GGTTCTGTCGATCAGTCAGA+TGG - chr2.3:12496867-12496886 MS.gene034453:CDS 50.0%
TCGCAGATCCTAGAGAGGAT+GGG + chr2.3:12496626-12496645 None:intergenic 50.0%
TTCGCAGATCCTAGAGAGGA+TGG + chr2.3:12496627-12496646 None:intergenic 50.0%
! GTCAGCCTTGTCAACTGTGA+AGG - chr2.3:12496533-12496552 MS.gene034453:CDS 50.0%
! TGCTCCATCTAGGGTTACTG+CGG - chr2.3:12496680-12496699 MS.gene034453:CDS 50.0%
! TGTGCTGGGAAGGTTGTTTC+CGG - chr2.3:12496846-12496865 MS.gene034453:CDS 50.0%
AGGTAGAGCATGCTCCAGCA+CGG + chr2.3:12496827-12496846 None:intergenic 55.0%
ATGCTCTACCTGTGCTGGGA+AGG - chr2.3:12496836-12496855 MS.gene034453:CDS 55.0%
GAGCATGCTCTACCTGTGCT+GGG - chr2.3:12496832-12496851 MS.gene034453:CDS 55.0%
GCTCCAGCACGGCATGAATA+TGG + chr2.3:12496816-12496835 None:intergenic 55.0%
GGAAACAACCTTCCCAGCAC+AGG + chr2.3:12496847-12496866 None:intergenic 55.0%
GGATGGGCACTTGACAGTTG+CGG + chr2.3:12496610-12496629 None:intergenic 55.0%
GTCAAGTGCCCATCCTCTCT+AGG - chr2.3:12496615-12496634 MS.gene034453:CDS 55.0%
! TCCATCTAGGGTTACTGCGG+TGG - chr2.3:12496683-12496702 MS.gene034453:CDS 55.0%
GCCACCGCAGTAACCCTAGA+TGG + chr2.3:12496687-12496706 None:intergenic 60.0%
GGAGCATGCTCTACCTGTGC+TGG - chr2.3:12496831-12496850 MS.gene034453:CDS 60.0%
TGGGCACTTGACAGTTGCGG+CGG + chr2.3:12496607-12496626 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 12496531 12496998 12496531 ID=MS.gene034453
chr2.3 mRNA 12496531 12496998 12496531 ID=MS.gene034453.t1;Parent=MS.gene034453
chr2.3 exon 12496531 12496998 12496531 ID=MS.gene034453.t1.exon1;Parent=MS.gene034453.t1
chr2.3 CDS 12496531 12496998 12496531 ID=cds.MS.gene034453.t1;Parent=MS.gene034453.t1
Gene Sequence

>MS.gene034453

ATGTCAGCCTTGTCAACTGTGAAGGTTTACCGCTATTGCACGCTTAAAACTGCTAACCAAAATCAATTCACTACCGCCGCAACTGTCAAGTGCCCATCCTCTCTAGGATCTGCGAAGAATGTTTCACGATCTTTTGGCCTGAAGTCATCTGCTCCATCTAGGGTTACTGCGGTGGCTGCTTACAAAATTAAGCTGATTGGTCCGGATGGAAAAGAAAATGAATTTGAGGCATCTGATGACACTTACATCTTAGATGCAGCAGAGAATGCAGGAGTTGAACTTCCATATTCATGCCGTGCTGGAGCATGCTCTACCTGTGCTGGGAAGGTTGTTTCCGGTTCTGTCGATCAGTCAGATGGCTCATTTCTCGATGACAATCAATTAAAGGAAGGTTATGTTCTAACATGTGTAGCCTATCCAACTTCAGACTGTGTTATTCATACGCACAAAGAAGGTGACCTCTATTGA
Protein sequence

>MS.gene034453.t1

MSALSTVKVYRYCTLKTANQNQFTTAATVKCPSSLGSAKNVSRSFGLKSSAPSRVTAVAAYKIKLIGPDGKENEFEASDDTYILDAAENAGVELPYSCRAGACSTCAGKVVSGSVDQSDGSFLDDNQLKEGYVLTCVAYPTSDCVIHTHKEGDLY